How To Install pscan-tfbs on Debian 12
Introduction
In this tutorial we learn how to install pscan-tfbs on Debian 12.
What is pscan-tfbs
pscan-tfbs is:
Pscan finds Over-represented Transcription Factor Binding Site Motifs in Sequences from Co-Regulated or Co-Expressed Genes.
Pscan is a software tool that scans a set of sequences (e.g. promoters) from co-regulated or co-expressed genes with motifs describing the binding specificity of known transcription factors and assesses which motifs are significantly over- or under-represented, providing thus hints on which transcription factors could be common regulators of the genes studied, together with the location of their candidate binding sites in the sequences. Pscan does not resort to comparisons with orthologous sequences and experimental results show that it compares favorably to other tools for the same task in terms of false positive predictions and computation time. The website is free and open to all users and there is no login requirement.
There are three methods to install pscan-tfbs on Debian 12. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install pscan-tfbs Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install pscan-tfbs using apt-get by running the following command:
sudo apt-get -y install pscan-tfbs
Install pscan-tfbs Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install pscan-tfbs using apt by running the following command:
sudo apt -y install pscan-tfbs
Install pscan-tfbs Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Debian. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install pscan-tfbs using aptitude by running the following command:
sudo aptitude -y install pscan-tfbs
How To Uninstall pscan-tfbs on Debian 12
To uninstall only the pscan-tfbs package we can use the following command:
sudo apt-get remove pscan-tfbs
Uninstall pscan-tfbs And Its Dependencies
To uninstall pscan-tfbs and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove pscan-tfbs
Remove pscan-tfbs Configurations and Data
To remove pscan-tfbs configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge pscan-tfbs
Remove pscan-tfbs configuration, data, and all of its dependencies
We can use the following command to remove pscan-tfbs configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge pscan-tfbs
Dependencies
pscan-tfbs have the following dependencies:
References
Summary
In this tutorial we learn how to install pscan-tfbs package on Debian 12 using different package management tools: apt, apt-get and aptitude.
